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The inference engine is simple, most of the reasoning being done by the algorithms described above.
As it turns out, isolated or off-manifold centers predicted by the algorithms described above are almost invariably false-positive detections.
Later, Li and Tompa [ 17] have categorized and examined the adequacy of three popular significance functions used by the algorithms described in [ 16].
The data arrays built by the algorithms described above were stored in a database to facilitate subsequent data analysis, which was performed using the Weka-3 package for data mining [ 19] and direct queries to the database.
δlow and δup are the computational lower and upper bounds found for δ by the algorithms described in Supplementary Notes in Additional File 1; δmax is the theoretical upper bound.
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Computing shortest-path betweenness in TVG can also be done in polynomial time, for example by adapting the algorithms described in [26, 30].
SF-12 scoring was carried out by means of the algorithms described by Apolone et al. [ 53]; to obtain final PCS-12 and MCS-12 scores, physical and mental weights corresponding to a response choice were summed and then standardized by adding a constant (different for the two summary scores) to the sum of physical or mental weights [ 53].
GP were implemented according to the algorithms described by Rasmussen and Williams [ 23].
However, these can easily be calculated from the intensity values reported for each array feature, using the algorithms described by Liu et al, [ 20].
This issue is discussed and handled by the algorithm described in Section 4.3.
While highly accurate, it did not meet efficiency requirements, and therefore it was replaced by the algorithm described below.
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